High pressure macromolecular crystallography for structural biology: A review

Central European Journal of Biology

Volumn 5, Issue 5, 2010, Pages 531-542

  Kurpiewska, Katarzyna ^a   Lewiński, Krzysztof ^a  

^a JAGIELLONIAN UNIVERSITY   (Poland)

Author keywords

Diamond anvil cell; High pressure macromolecular crystallography; Protein crystal; Protein structure

Indexed keywords

EID: 77955850280     PISSN: 1895104X     EISSN: 16443632     Source Type: Journal    
DOI: 10.2478/s11535-010-0044-y     Document Type: Review

References (82)

1. Winter R., High pressure effects in molecular bioscience, In: Riad Manaa M., (Ed.), Chemistry at extreme conditions, Elsevier B. V., 2005, 29-82.
2. Katrusiak A., High-pressure crystallography, Acta Cryst., 2008, A64, 135-148.
3. Paszkowicz W., High-pressure powder X-ray diffraction at the turn of the century, Nucl. Instr. Meth. Phys. Res. B, 2002, 198, 142-182.
4. McMillan P. C. F., Crystallography and solid state chemistry at high pressure, In: Katrusiak A., McMillan P. F., (Eds.), High Pressure Crystallography, Kluwer, Dordrecht, 2004, 367-392.
5. Liebermann R. C., Li B. S., Ultrahigh-pressure mineralogy: physics and chemistry of the Earth's deep interior, In: Hemley R. J., Mao H.-K., (Eds.), Reviews in Mineralogy, Mineralogical Society of America, Washington, DC, 1998, 37, 459-492.
6. Duffy T. S., Synchrotron facilities and the study of the Earth's deep interior, Rep. Prog. Phys., 2005, 68, 1811-1859.
7. Gauzzi A., Gilioli E., Licci F., Prodi A., Bolzoni F., Marezio M., et al., Pressure effects on structural and electronic properties of superconductors, In: Katrusiak A., McMillan P. F., (Eds.), High-Pressure Crystallography, Kluwer Academic Publishers, Dordrecht, 2004, 429-446.
8. Edvards P. P., Hensel F., Will solid hydrogen ever be a maetal?, Nature (London), 1997, 388, 621-622.
9. Huppertz H., Multianvil high-pressure/high-temperature synthesis in solid state chemistry, Z. Kristallogr., 2004, 219, 330-338.
10. Kim E., Pang T., Utsumi W., Solozhenko V. L., Zhao Y., Cubic phases of BC2N, Phys. Rev. B, 2007, 75, 184115 (1-4).
11. Gajda R., Katrusiak A., In-situ high-pressure study of the ordered phase of ethyl propionate, Acta Cryst. Sect. B - Structural Science, 2007, 63, 111-117.
12. Fabbiani F. P. A., Pulham C. R., High-pressure studies of pharmaceutical compounds and energetic materials, Chem. Soc. Rev., 2006, 35, 932-942.
13. Boldyreva E. V., Shakhtshneider T. P., Ahsbahs H., Uchtmann H., Burgina E. B., Baltakhinov V. P., The role of hydrogen bonds in the pressure-induced structural distortion of 4-hydroxyacetanilide crystals, Pol. J. Chem., 2002, 76, 1333-1346.
14. Kundrot C. E, Richards F. M., Crystal structure of hen egg-white lysozyme at a hydrostatic pressure of 1000 atmospheres, J. Mol. Biol., 1987, 193, 157-170.
15. Fourme R., Girard E., Kahn R., Dhaussy A.-C., Mezouar M., Colloc'h N., et al., High-pressure macromolecular crystallography (HPMX): Status and prospects, BBA-Proteins Proteomics, 2006, 1764, 384-390.
16. Girard E., Kahn R., Dhaussy A.-C., Ascone I., Mezouar M., Fourme R., In: Choi J.-Y., Rah S., (Eds.), Synchrotron Radiation Instrumentation: Ninth International Conference on Synchrotron Radiation Instrumentation, American Institute of Physics Conference Proceedings, 2007, 879, 1883-1886.
17. Fourme R., Ascone I., Kahn R., Mezouar M., Bouvier P., Girard E., et al., Opening the high-pressure domain beyond 2 kbar to protein and virus crystallography-technical advance, Structure, 2002, 10, 1409-1414.
18. Girard E., Kahn R., Mezouar M., Dhaussy A.-C., Lin T., Johnson J. E., et al., The first crystal structure of a macromolecular assembly under high pressure: CpMV at 330 MPa, Biophys. J., 2005, 88, 3562-3571.
19. Akasaka K., Probing Conformational Fluctuation of Proteins by Pressure Perturbation, Chem. Rev., 2006, 106, 1814-1835.
20. Heremans K., Smeller L., Protein structure and dynamics at high pressure, BBA-Protein Structure and Molecular Enzymology, 1998, 1368, 353-370.
21. Balny C., Pressure effects on weak interactions in biological systems, J. Phys.-Condens. Matter, 2004, 16, 1245-1253.
22. Kornblatt M. J., Lange R., Balny C., Can monomers of yeast enolase have enzymatic activity?, Eur. J. Biochem., 1998, 251, 775-780.
23. Athes V., Combes D., Zwick A., Raman spectroscopic studies of native and pressure-or temperature-denaturated invertase, J. Raman Spectrosc., 1998, 29, 373-378.
24. Tanaka N., Mitani D., Kunugi S., Pressureinduced perturbation on the active site of β-amylase monitored from the sulfhydryl reaction, Biochemistry, 2001, 40, 5914-5920.
25. Suarez M. C., Lehrer S. S., Silva J. L., Local heterogeneity in the pressure denaturation of the coiled-coil tropomyosin because of subdomain folding units, Biochemistry, 2001, 40, 1300-1307.
26. Lullien-Pellerin V., Balny C., High-pressure as a tool to study some proteins' properties: conformational modification, activity and oligomeric dissociation, Innov. Food Sci. Emerg. Technol., 2002, 3, 209-221.
27. Northrop D. B., Effects of high pressure on enzymatic activity, BBA-Protein Structure and Molecular Enzymology, 2002, 159, 71-79.
28. Cléry C., Heiber-Langer I., Channac L., David L., Balny C., Masson P., Substrate dependence of amiloride- and soman-induced conformation changes of butyrylcholinesterase as evidenced by high-pressure perturbation, BBA-Protein Structure and Molecular Enzymology, 1995, 1250, 19-28.
29. Lange R., Bec N., Anzenbacher P., Munro A. W., Gorren A. C. F., Mayer B., Use of high pressure to study elementary steps in P450 and nitric oxide synthase, J. Inorg. Biochem., 2001, 87, 191-195.
30. Kunugi S., Kitayaki M., Yanagi Y., Tanaka N., Lange R., Balny C., The effect of high pressure on thermolysin, Eur. J. Biochem., 1997, 248, 567-574.
31. Rariy R. V., Bec N., Saldana J. L., Nametkin S. N., Mozhaev V. V., Klyachko N. L., et al., High-pressure stabilization of α-chymotrypsyn entrapped in reversed micelles of aerosol OT in octane against thermal inactivation, FEBS Lett., 1995, 364, 98-100.
32. Dahlhoff E., Somero G. N., Pressure and temperature adaptation of cytosolic malate dehydrogenases of shallow- and deep-living marine invertebrates: Evidence for high body temperatures in hydrothermal vent animals, J. Exp. Biol., 1991, 159, 473-487.
33. Dumoulin M., Ueno H., Hayashi R., Balny C., Contribution of the carbohydrate moiety to conformational stability of carboxypeptidase Y., High pressure study, Eur. J. Biochem., 1999, 262, 475-483.
34. Kornblatt J. A., Kornblatt M. J., Hui Bon Hoa G., Mauk A. G., Responses of two protein-protein complexes to solvent stress: does water play a role at the interface?, Biophys. J., 1993, 65, 1059-1065.
35. Aertsen A., Meersman F., Hendrickx M. E. G., Vogel R. F., Michiels C., Biotechnology under high pressure: applications and implications, Trends Biotechnol., 2009, 27, 434-441.
36. Hayashi R., High pressure in bioscience and biotechnology: pure science encompassed in pursuit of value, BBA-Protein Structure and Molecular Enzymology, 2002, 1595, 397-399.
37. Olsen K., Ipsen R., Otte J., Skibsted L. H., Effect of high pressure on aggregation and thermal gelation of β-lactoglobulin, Milchwissenschaft, 1999, 54, 543-546.
38. Spinozzi F., Mariani P., Saturni L., Carsughi F., Bernstroff S., Cinelli S., et al., Met-myoglobin association in dilute solution during pressureinduced denaturation: an analysis at pH 4. 5 by high-pressure small-angle X-ray scattering, J. Phys. Chem., 2007, 111, 3822-3830.
39. Dzwolak W., Pressure tuning of insulin aggregation pathways, High Pressure Res., 2004, 24, 511-516.
40. Gu Z., Zhu X., Ni S., Su Z., Zhou H.-M., Conformational changes of lysozyme refolding intermediates and implications for aggregation and renaturation, Int. J. Biochem. Cell Biol., 2004, 36, 795-805.
41. Torrent J., Alvarez-Martinez M. T., Heitz F., Liautard J. P., Balny C., Lange R., Alternative prion structural changes revealed by high pressure, Biochemistry, 2003, 42, 1318-1325.
42. Ferrao-Gonzales A. D., Souto S. O., Silva, J. L., Foguel D., The preaggregated state of an amyloidogenic protein: Hydrostatic pressure converts native transthyretin into the amyloidogenic state, Proc. Natl. Acad. Sci. USA, 2000, 97, 6445-6450.
43. Foguel D., Suarez M. C., Ferrao-Gonzales A. D, Porto T. C. R., Palmieri L., Einsiedler C. M., et al., Dissociation of amyloid fibrils of {alpha}-synuclein and transthyretin by pressure reveals their reversible nature and the formation of water-excluded cavities, Proc. Natl. Acad. Sci. USA, 2003, 100, 9831-9836.
44. Marchal S., Shehi E., Harricane M.-C., Fusi P., Heitz F., Tortora P., et al., Structural instability and fibrillar aggregation of non-expanded human ataxin-3 revealed under high pressure and temperature, J. Biol. Chem., 2003, 278, 31554-31563.
45. Foguel D., Silva J. L., New insights into the mechanisms of protein misfolding and aggregation in amyloidogenic diseases derived from pressure studies, Biochemistry, 2004, 43, 11361-11370.
46. Torrent J., Balny C., Lange R., High pressure modulates amyloid formation, Protein Pept. Lett., 2006, 13, 271-277.
47. Baker E., Solvent interactions with proteins as revealed by X-ray crystallographic studies In: Gregory R. B., (Ed.), Protein-solvent interactions, Marcel Dekker, New York, 1995, 143-185.
48. Katrusiak A., Dauter Z., Compressibility of lysozyme protein crystals by X-ray diffraction, Acta Crystallogr. Sect. D-Biol. Crystallogr., 1996, 52, 607-608.
49. Suzuki Y., Sazaki G., Miyashita S., Sawada T., Tamura K., Komatsu H., Protein crystallization under high pressure, BBA-Protein Structure and Molecular Enzymology, 2002, 1595, 345-356.
50. Kadri A., Lorber B., Charron C., Robert M. C., Capelle B., Damak M., et al., Crystal quality and differential crystal-growth behaviour of three proteins crystallized in gel at high hydrostatic pressure, Acta Crystallogr. Sect. D-Biol. Crystallogr., 2005, 61, 784-788.
51. Groß M., Jaenicke R., Growth inhibition of lysozyme crystals at high hydrostatic pressure, FEBS Lett., 1991, 284, 87-90.
52. Charron C., Robert M. C., Capelle B., Kadri A., Jenner G., Giege R., et al., X-ray diffraction properties of protein crystals prepared in agarose gel under hydrostatic pressure, J. Cryst. Growth, 2002, 245, 321-333.
53. Sazaki G., Nagatoshi Y., Suzuki Y., Durbin S. D., Miyashita S., Nakada T., et al., Solubility of tetragonal and orthorhombic lysozyme crystals under high pressure, J. Cryst. Growth, 1999, 196, 204-209.
54. Waghmare R. Y., Pan X. J., Glatz C. E., Pressure and concentration dependence of nucleation kinetics for crystallization of subtilisin, J. Cryst. Growth, 2000, 210, 746-757.
55. Suzuki Y., Sazaki, Sawada T., Miyashita S., Komatsu H., Tamura K., Protein crystallization under high hydrostatic pressure, Nucl. Instr. Meth. Phys. Res. B, 2003, 13, 149-157.
56. Weir C. E., Lippincott E. R., van Valkenburg A., Bunting E. N., Infrared studies in the 1- to 15-micron region to 30, 000 atmospheres, J. Natl. Bur. Stand., Sec. A, 1959, 63, 55-62.
57. Ferraro J. R., van Valkenburg E., Origins of the diamond anvil cell: The versatile sampling accessory marks its 40th year, Spectroscopy, 1999, 14, 19-23.
58. Merrill L., Bassett W. A., Miniature diamond anvil pressure cell for single crystal X-ray diffraction studies, Rev. Sci. Instrum., 1974, 45, 290-294.
59. Keller R., Holzapfel W. B., Diamond anvil device for x-ray diffraction on single crystals under pressures up to 100 kilobar, Rev. Sci. Instrum., 1977, 48, 517-523.
60. Le Toullec R., Pinceaux J.-P., Loubeyre P., The membrane diamond anvil cell: A new device for generating continuous pressure and temperature variations, High Press. Res., 1988, 1, 77-90.
61. Chervin J. C., Canny B., Besson J. M., Pruzan Ph., A diamond anvil cell for IR microspectroscopy, Rev. Sci. Instrum., 1995, 66, 2595-2598.
62. Piermarini G. J., High pressure X-ray crystallography with the diamond cell at NIST/NBS, J. Res. Natl. Inst. Stand. Technol., 2001, 106, 889-920.
63. Girard E., Dhaussy A.-C., Couzinet B., Chervin J. C., Mezouar M., Kahn R., et al., Toward fully fledged high-pressure macromolecular crystallography, J. Appl. Crystallogr., 2007, 40, 912-918.
64. Urayama P., Phipils G. N., Gruner S. M. Probing substates in sperm whale myoglobin using highpressure crystallography, Structure, 2002, 10, 51-60.
65. Ekstrom J. L., Ealick S. E., Osterberg F. H. O., Gruner S., Effect of pressure on protein dynamics: a crystallographic study, Am. Cryst. Assoc. Meet., 1995, Abstract A319, Montreal, Canada.
66. Collins M. D., Hummer G., Quillin M. L., Matthews B. W., Gruner S. M., Cooperative water filling of a nonpolar protein cavity observed by high-pressure crystallography and simulation, Proc. Natl. Acad. Sci. USA, 2004, 102, 16668-16671.
67. Ando N., Barstow A. N., Baase W. A., Fields A., Matthews B. W., Gruner S. M., Structural and thermodynamic characterization of T4 lysozyme mutants and the contribution of internal cavities to pressure denaturation, Biochemistry, 2008, 47, 11097-11109.
68. Fourme R., Kahn R., Mezouar M., Girard E., Hoerentrup C., Prange T., et al., High-pressure protein crystallography (HPPX): instrumentation, methodology and results on lysozyme crystals, J. Synchrotron Rad., 2001, 8, 1149-1156.
69. Fourme R., Girard E., Kahn R., Dhaussy A. C., Ascone I., Advances in high-pressure biophysics: status and prospects of macromolecular crystallography, Ann. Rev. Biophys., 2009, 38, 153-171.
70. Girard E., Kahn R., Mezouar M., Dhaussy A.-C., Lin T., Johnson J. E., et al., The first crystal structure of a macromolecular assembly under high pressure: CpMV at 330 MPa, Biophys. J., 2005, 88, 3562-3571.
71. Colloc'h N., Girard E., Dhaussy A.-C., Kahn R., Ascone I., Mezouar M., et al., High pressure macromolecular crystallography: The 140-MPa crystal structure at 2. 3 angstrom resolution of urate oxidase, a 135-kDa tetrameric assembly, BBAProteins Proteomics, 2006, 1764, 391-397.
72. Girard E., Prange T., Dhaussy A.-C., Migianu-Griffoni E., Lecouvey M., Chervin J. C., et al., Adaptation of the base-paired double-helix molecular architecture to extreme pressure, Nucl. Acids Res., 2007, 35, 4800-4808.
73. Kim C. U., Hao Q., Gruner S. M., Solution of protein crystallographic structures by high-pressure cryocooling and noble-gas phasing, Acta Crystallogr. Sect. D-Biol. Crystallogr., 2006, 62, 687-694.
74. Kim C. U., Kapfer R., Gruner S. M., High-pressure cooling of protein crystals without cryoprotectants, Acta Crystallogr. Sect. D-Biol. Crystallogr., 2005, 61, 881-890.
75. Kim C. U., Chen Y. F., Tate M. W., Gruner S. M., Pressure induced high-density amorphous ice in protein crystals, J. Appl. Crystallogr., 2008, 41, 1-7.
76. Barstow B., Ando N., Kim C. U., Gruner S. M., Alternation of citrine structure by hydrostatic pressure explains the accompanying spectral shift, Proc. Natl. Acad. Sci. USA, 2008, 105, 13362-13366.
77. Colloc'h N., Sopkova-de Oliveira Santos J., Retailleau P., Lanlois d'Estainto B., Gallois B., Brisson A., et al., Protein crystallography under xenon and nitrous oxide pressure: Comparison with in vivo pharmacology studies and implications for the mechanism of inhaled anesthetic action, Biophys. J., 2007, 92, 217-224.
78. Prange T., Schiltz M., Pernot L., Colloc'h N., Longhi S., Bourguet W., et al., Exploring hydrophobic sites in proteins with Xenon or Krypton, Proteins, 1998, 30, 61-73.
79. Nienhaus K., Maes E. M., Weichsel A., Montfort W. R., Nienhaus G. U., Structural dynamics controls nitric oxide affinity in Nitrophorin 4, J. Biol. Chem., 2004, 279, 39401-39407.
80. Schlitz M., Shepard W., Fourme R., Prange T., de la Fortelle E., Bricogne G., High-pressure krypton gas and statistical heavy-atom refinement: a successful combination of tools for macromolecular structure determination, Acta Crystallogr. Sect. D-Biol. Crystallogr., 1997, 53, 78-92.
81. Fourme R., Ascone I., Kahn R., Girard E., Mezouar M., Lin T., et al., New trends in macromolecular crystallography at high hydrostatic pressure In: Winter R., (Ed.), Advances in High Pressure Bioscience and Biotechnology II, Springer-Verlag, Berlin, 2002, 161-70.
82. Kim C. U., Hao Q., Gruner S. M., High-pressure cryocooling for capillary sample cryoprotection and diffraction phasing at long wavelengths, Acta Crystallogr. Sect. D-Biol. Crystallogr., 2007, 63, 653-659.